Hierarchical alignments with the V. vinifera genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Fabaceae genomes. We used P. vulgaris as a reference, and by comparing homologous gene locus maps and Ks values between P. vulgaris and other Fabaceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We created two hierarchical lists of homologous genes using P. vulgaris as a reference.
  The relevant gene ids can be obtained from the Fabaceae blast and match under the Tools module. This link is Fabaceae blast and match.
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Select Download Tree Vvi Acco_1 Acco_2 Accr_1 Accr_2 Adu_1 Adu_2 Aed_1 Aed_2 Aev_1 Aev_2 Ahy_1 Ahy_2 Aip_1 Aip_2 Alju_1 Alju_2 Amo_1 Amo_2 Apr_1 Apr_2 Arst_1 Arst_2 Bach_1 Bach_2 Bisa_1 Bisa_2 Bva_1 Bva_2 Car_1 Car_2 Cca_1 Cca_2 Dere_1 Dere_2 Dod_1 Dod_2 Enph_1 Enph_2 Glsi_1 Glsi_2 Gma_1 Gma_2 Gma_3 Gma_4 Gso_1 Gso_2 Gso_3 Gso_4 Lal_1 Lal_2 Lal_3 Lal_4 Lal_5 Lal_6 Lan_1 Lan_2 Lan_3 Lan_4 Lan_5 Lan_6 Lapu_1 Lapu_2 Lasa_1 Lasa_2 Lele_1 Lele_2 Lele_3 Lele_4 Lele_5 Lele_6 Lele_7 Lele_8 Lja_1 Lja_2 Mal_1 Mal_2 Mepo_1 Mepo_2 Mesa_1 Mesa_2 Mibi_1 Mibi_2 Mtr_1 Mtr_2 Phac_1 Phac_2 Phco_1 Phco_2 Prci_1 Prci_2 Psa_1 Psa_2 Pste_1 Pste_2 Pte_1 Pte_2 Pte_3 Pte_4 Pumo_1 Pumo_2 Pvu_1 Pvu_2 Rops_1 Rops_2 Seca_1 Seca_2 Spst_1 Spst_2 Ssu_1 Ssu_2 Sto_1 Sto_2 Tpr_1 Tpr_2 Trre_1 Trre_2 Tsu_1 Tsu_2 Vian_1 Vian_2 Vifa_1 Vifa_2 Vimu_1 Vimu_2 Viun_1 Viun_2 Vivi_1 Vivi_2 Vra_1 Vra_2
Vvi3g0533 . . . . . . . . . . . . . . . . . . Apr3g1690 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g3381 . . . . . . . . Mtr4g2838 . . . . . . . Psa6g2205 . . . . . . . . . . . . . . . . . . . Sto2g0646 . . . . . . . . . . . . . . . . . . .
Vvi3g0534 . Acco12g2009 . Accr10g00090 . Adu01g00030 . . . . Ahy20g1526 . Aip10g01765 . . Alju12g0142 . . . . . Arst1g00040 . . . Bisa01g1940 . . . Car08g00530 . . . Dere13g0569 . . . Enph14g0499 . Glsi09g0492 . . . . . . . . . . . . . . . . . . . . . Lapu3g01587 . Lasa2g03210 . . . . Lele53g0104 . Lele55g1387 Lele56g1328 . . . . . Mepo1g01969 . . . Mibi10g0116 . . . . . Phco8g00555 . Prci5g0167 . Psa2g3737 . Pste7g01314 . . . . . . . Pvu3g2554 . . . . . Spst3g03967 . . . . . . . Trre15g03954 . . . . . . . Vimu7g02854 . Viun3g03763 . Vivi1g02937 . .
Vvi3g0535 . . . . . . . . . . Ahy20g1524 . Aip10g01761 . . . Amo20g1695 . Apr3g1691 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g3382 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0536 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr4g2839 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr4g1818 . . . Tsu02g03421 . . . . . . . . . . . . .
Vvi3g0537 . . . . . . . . . . Ahy20g1523 . Aip10g01757 . . . Amo20g1691 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0538 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0539 . . . . . Adu01g00034 . . . Aev05g0604 . Ahy15g0686 . Aip05g00702 . . . . . . . Arst1g00044 . Bach10g00492 . . . Bva14g00339 . . . . . . . Dod02g0662 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g01588 . Lasa4g02449 . . . . . . . . . Lja2g0375 . . . . . . . . . . . Phac3g03898 . Phco8g00553 . . . Psa2g3732 . Pste7g01320 . . Pte14g00945 Pte12g00376 . Pumo4g02037 . Pvu3g2555 . . . . . Spst3g03964 . . . . . . . . . . . Vian1g01711 . Vifa4g00111 . Vimu7g02855 . Viun3g03761 . Vivi1g02938 . .
Vvi3g0540 . . . . . . . . . . Ahy20g1522 . Aip10g01756 . . . Amo20g1689 . . . . . . . . . . . Car06g01692 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3408 . . . . . . . Mtr4g2840 . . . . . . . Psa7g2782 . . . . . . . . . . . . . . . . . . . . . Tpr4g1817 . . . Tsu02g03425 . . . . . . . . . . . . .
Vvi3g0541 . . . . . . . . Aev03g0203 . Ahy20g1519 . Aip10g01737 . . . Amo20g1678 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0542 . . . . . . . . . . Ahy20g1518 . Aip10g01736 . . . Amo20g1677 . . . . . . . . . . . Car06g01691 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3410 . . . . . . . Mtr4g2841 . . . . . . . Psa7g2780 . . . . . . . . . . . . . . . . . . . . . Tpr4g1816 . . . Tsu02g03426 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Pte Pte14g00945 Chr14 31123819 31125230 -
Vvi Vvi3g0533 Chr3 4651755 4652826 -
Apr Apr3g1690 Chr3 32543608 32545074 -
Lja Lja2g3381 Chr2 77281576 77284613 +
Mtr Mtr4g2838 Chr4 42078872 42080646 -
Psa Psa6g2205 Chr6 155713127 155714626 -
Sto Sto2g0646 Chr2 5495396 5499028 -
Vvi Vvi3g0534 Chr3 4667874 4668867 -
Acco Acco12g2009 Chr12 31674625 31675547 +
Accr Accr10g00090 Chr10 1427967 1428922 -
Adu Adu01g00030 Chr01 565045 569303 +
Ahy Ahy20g1526 Chr20 44978698 44993844 +
Aip Aip10g01765 Chr10 42026035 42034289 +
Alju Alju12g0142 Chr12 1759716 1761886 -
Arst Arst1g00040 Chr1 543103 547823 +
Bisa Bisa01g1940 Chr01 33920067 33923988 -
Car Car08g00530 Chr08 4492197 4497117 -
Dere Dere13g0569 Chr13 7143777 7144432 +
Enph Enph14g0499 Chr14 6979323 6980558 -
Glsi Glsi09g0492 Chr09 3417684 3420023 -
Lapu Lapu3g01587 Chr3 19516754 19519800 +
Lasa Lasa2g03210 Chr2 525447325 525448281 +
Lele Lele53g0104 Chr53 758964 762572 -
Lele Lele55g1387 Chr55 20268553 20269591 +
Lele Lele56g1328 Chr56 16549044 16550054 +
Mepo Mepo1g01969 Chr1 20100184 20102737 +
Mibi Mibi10g0116 Chr10 1788456 1789937 -
Phco Phco8g00555 Chr8 5522625 5525175 -
Prci Prci5g0167 Chr5 2449105 2450435 -
Psa Psa2g3737 Chr2 398229343 398234215 +
Pste Pste7g01314 Chr7 11879455 11883686 -
Pvu Pvu3g2554 Chr3 47428502 47431807 +
Spst Spst3g03967 Chr3 90107750 90109732 -
Trre Trre15g03954 Chr15 49627588 49629743 +
Vimu Vimu7g02854 Chr7 24133686 24134656 -
Viun Viun3g03763 Chr3 44766246 44767792 -
Vivi Vivi1g02937 Chr1 64128917 64135595 +
Vvi Vvi3g0535 Chr3 4675263 4676619 -
Ahy Ahy20g1524 Chr20 44799097 44802123 +
Aip Aip10g01761 Chr10 41865182 41868121 +
Amo Amo20g1695 Chr20 48495624 48498584 +
Apr Apr3g1691 Chr3 32546959 32548805 -
Lja Lja2g3382 Chr2 77325919 77335852 -
Vvi Vvi3g0536 Chr3 4691827 4693030 -
Mtr Mtr4g2839 Chr4 42084970 42087247 -
Tpr Tpr4g1818 Chr4 18990881 18997553 -
Tsu Tsu02g03421 Chr02 38318074 38320391 -
Vvi Vvi3g0537 Chr3 4701996 4707486 -
Ahy Ahy20g1523 Chr20 44668902 44672832 +
Aip Aip10g01757 Chr10 41742563 41746069 +
Amo Amo20g1691 Chr20 48262625 48267128 +
Vvi Vvi3g0538 Chr3 4709335 4709541 +
Vvi Vvi3g0539 Chr3 4709979 4710972 -
Adu Adu01g00034 Chr01 600375 603114 -
Aev Aev05g0604 Chr05 4160051 4161129 -
Ahy Ahy15g0686 Chr15 9238241 9243342 -
Aip Aip05g00702 Chr05 8913682 8918775 -
Arst Arst1g00044 Chr1 575405 578529 +
Bach Bach10g00492 Chr10 3537720 3538995 -
Bva Bva14g00339 Chr14 1682619 1684084 +
Dod Dod02g0662 Chr02 8601184 8604872 +
Lapu Lapu3g01588 Chr3 19538208 19546796 +
Lasa Lasa4g02449 Chr4 476490650 476494941 -
Lja Lja2g0375 Chr2 3450784 3452015 -
Phac Phac3g03898 Chr3 38721444 38723526 +
Phco Phco8g00553 Chr8 5492568 5494101 -
Psa Psa2g3732 Chr2 398108979 398111120 -
Pste Pste7g01320 Chr7 11917170 11920126 +
Pte Pte14g00945 Chr14 31123819 31125230 -
Pte Pte12g00376 Chr12 3128335 3130436 +
Pumo Pumo4g02037 Chr4 28774485 28776535 +
Pvu Pvu3g2555 Chr3 47435257 47437150 +
Spst Spst3g03964 Chr3 90061301 90063649 -
Vian Vian1g01711 Chr1 19749053 19750509 +
Vifa Vifa4g00111 Chr4 13493819 13494874 -
Vimu Vimu7g02855 Chr7 24139797 24141097 -
Viun Viun3g03761 Chr3 44729856 44731123 -
Vivi Vivi1g02938 Chr1 64144674 64147375 +
Vvi Vvi3g0540 Chr3 4712378 4725151 -
Ahy Ahy20g1522 Chr20 44642275 44647412 +
Aip Aip10g01756 Chr10 41716768 41718492 +
Amo Amo20g1689 Chr20 48230694 48232526 +
Car Car06g01692 Chr06 16642208 16644491 +
Mal Mal7g3408 Chr7 99032378 99035180 -
Mtr Mtr4g2840 Chr4 42090181 42093474 -
Psa Psa7g2782 Chr7 199226874 199228878 +
Tpr Tpr4g1817 Chr4 18988174 18990336 -
Tsu Tsu02g03425 Chr02 38329991 38332025 -
Vvi Vvi3g0541 Chr3 4733147 4733971 -
Aev Aev03g0203 Chr03 1575539 1578583 +
Ahy Ahy20g1519 Chr20 44283981 44286743 +
Aip Aip10g01737 Chr10 41353329 41355414 +
Amo Amo20g1678 Chr20 47880807 47883433 +
Vvi Vvi3g0542 Chr3 4755007 4756217 -
Ahy Ahy20g1518 Chr20 44079337 44081966 +
Aip Aip10g01736 Chr10 41186460 41189579 +
Amo Amo20g1677 Chr20 47732954 47737133 +
Car Car06g01691 Chr06 16639094 16640892 +
Mal Mal7g3410 Chr7 99073283 99075115 -
Mtr Mtr4g2841 Chr4 42095852 42097421 -
Psa Psa7g2780 Chr7 199202937 199204335 +
Tpr Tpr4g1816 Chr4 18972379 18974437 -
Tsu Tsu02g03426 Chr02 38336841 38339116 -